Sequence
atgc intronic sequence ATGC exonic sequencegtgtgctaaaaaacttggaatttcctttttttcatttatactcatttgcagctagtcataaatcatgtgttattaacttataataatcttagttatggatgaactatgatcatgtattttgataattttttgatgtttattatattgtcttgcttcgaggatactttgagaggttaaattcagatgtcatcctttcagGCACTGGAAGCCATTGAAAAGCTGCAGAAAAATGTGGATACACTTATAGTGATTCCAAATGACCGCCTGCTTGACATGGCTGATGAGCAGACACCTCTTC
Basic information
species | Glycine max |
transcript | GLYMA18G10030.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G10030.1 (Glycine max), 3'ss of exon 4
lower sequence: AT5G55280.1 (Arabidopsis thaliana), 3'ss of exon 3
gtgtgctaaaaaacttggaatttcctttttttcatttatactcatttgcagctagtcataaatcatgtgttattaacttataataatcttagttatggatgaactatgatcatgtattttgataattttttgatgtttattatattgtcttgcttcgaggatactttgagaggttaaattcagatgtcatcctttc----agGCACTGGAAGCCATTGAAAAGCTGCAGAAAAATGTGGATACACTTATAGTGATTCCAAATGACCGCCTGCTTGACATGGCTGATGAGCAGACACCTCTTC
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------------------------------------------------------------------------------------------------------------gtaatgtgtgttgacaccgtttc-----ttgttgaatgggtttaagtttaaagtcttgttatggatctatgcctgatttggttatttcctctagGCACTGGAAGCTATTGAAAAGCTCCAAAAGAATGTTGATACCCTTATCGTGATTCCAAATGATCGTCTGCTAGATATTGCTGATGAACAGACGCCACTTC
upper sequence: GLYMA18G10030.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv19s0090g01320.t01 (Vitis vinifera), 3'ss of exon 3
gtgtgctaaaaaacttggaatttcctttttttcatttatactcatttgcagctagtcataaatcatgtgttattaacttataataatcttagttatggatgaactatgatcatgtattttgataattttttgatgtttattatattgtcttgcttcgaggatactttgagaggttaaattcagatgtcatcctttcagGCACTGGAAGCCATTGAAAAGCTGCAGAAAAATGTGGATACACTTATAGTGATTCCAAATGACCGCCTGCTTGACATGGCTGATGAGCAGACACCTCTTC
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--------------------------------------------------------------------------------------------ctaattccaagtttcaagcttatgattttgcagctgtatcaaatatgttgtactatattgagttccaaacagtc--atgtgttgtatt----tgcttttgttttagGCATTGGAGGCTATTGAAAAGTTGCAAAAGAATGTTGACACACTAATAGTAATTCCCAATGATCGTCTGCTGGATATTGCCGATGAACAGACACCTCTTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attgtcttgcttcgaggatactttgagaggttaaattcagatgtcatcctttcagGCACTGGAAGCCATTGAAAAGCTGCAGAAAAATGTGGATACACTTATAGTGATTCCAAATGACCGCCTGCTTGACATGGCTGATGAGCAGACACCTCTTC
tcatcctttc CT-rich tract
ttaaattca TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgtgctaaaaaacttggaatttcctttttttcatttatactcatttgcagctagtcataaatcatgtgttattaacttataataatcttagttatggatgaactatgatcatgtattttgataattttttgatgtttattatattgtcttgcttcgaggatactttgagaggttaaattcagatgtcatcctttcagGCACTGGAAGCCATTGAAAAGCTGCAGAAAAATGTGGATACACTTATAGTGATTCCAAATGACCGCCTGCTTGACATGGCTGATGAGCAGACACCTCTTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG